3n9n

X-ray diffraction
2.3Å resolution

ceKDM7A from C.elegans, complex with H3K4me3K9me2 peptide and NOG

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Lysine-specific demethylase 7 homolog Chain: A
Molecule details ›
Chain: A
Length: 528 amino acids
Theoretical weight: 61.95 KDa
Source organism: Caenorhabditis elegans
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9GYI0 (Residues: 201-724; Coverage: 58%)
Gene names: F29B9.2, jmjd-1.2
Sequence domains:
Structure domains:
Histone H3 Chains: B, C
Molecule details ›
Chains: B, C
Length: 32 amino acids
Theoretical weight: 3.4 KDa
Source organism: Caenorhabditis elegans
Expression system: Not provided
UniProt:
  • Canonical: P08898 (Residues: 2-33; Coverage: 24%)
Gene names: B0035.10, F07B7.5, F08G2.3, F17E9.10, F22B3.2, F45F2.13, F54E12.1, F55G1.2, K06C4.13, K06C4.5, T10C6.13, ZK131.2, ZK131.3, ZK131.7, his-13, his-17, his-2, his-25, his-27, his-32, his-42, his-45, his-49, his-55, his-59, his-6, his-63, his-9

Ligands and Environments

3 bound ligands:

2 modified residues:

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Spacegroup: P212121
Unit cell:
a: 68.4Å b: 85.543Å c: 102.55Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.192 0.189 0.24
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided